LOCUS       NZ_CP114366             3672 bp    DNA     circular CON 18-FEB-2024
DEFINITION  Klebsiella variicola strain 2022CK-00568 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP114366
VERSION     NZ_CP114366.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31592763
            Assembly: GCF_026069095.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella variicola
  ORGANISM  Klebsiella variicola
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3672)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     2022CK-00568
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3672)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-DEC-2022) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
REFERENCE   3  (bases 1 to 3672)
  CONSRTM   Clinical and Environmental Microbiology Branch: Whole genome
            sequencing antimicrobial resistance pathogens in the healthcare
            setting
  TITLE     Direct Submission
  JOURNAL   Submitted (03-NOV-2022) Division of Healthcare Quality Promotion, US
            Centers for Disease Control and Prevention, 1600 Clifton Rd,
            Atlanta, GA, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 31.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/18/2024 04:45:32
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,974
            CDSs (total)                      :: 5,847
            Genes (coding)                    :: 5,675
            CDSs (with protein)               :: 5,675
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 172
            CDSs (without protein)            :: 172
            Pseudo Genes (ambiguous residues) :: 0 of 172
            Pseudo Genes (frameshifted)       :: 65 of 172
            Pseudo Genes (incomplete)         :: 107 of 172
            Pseudo Genes (internal stop)      :: 41 of 172
            Pseudo Genes (multiple problems)  :: 35 of 172
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP114366.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3672
                     /organism="Klebsiella variicola"
                     /mol_type="genomic DNA"
                     /strain="2022CK-00568"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:244366"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA"
                     /collection_date="2022-08-07"
     gene            complement(78..380)
                     /locus_tag="OPU52_RS29760"
                     /old_locus_tag="OPU52_29755"
     CDS             complement(78..380)
                     /locus_tag="OPU52_RS29760"
                     /old_locus_tag="OPU52_29755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006326557.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3892 domain-containing protein"
                     /protein_id="WP_023317863.1"
                     /translation="MVDFYISAIKMDSAGQHIEFVKVHKINRDGSWNTAGSISSRKFIS
                     ELISMGKASFMTVVKNSSTGKWNLGAKVEAMNDGYITTDPNKTKLDNLGNLPKFV"
                     /name="DUF3892 domain-containing protein"
     gene            complement(444..737)
                     /locus_tag="OPU52_RS29765"
                     /old_locus_tag="OPU52_29760"
     CDS             complement(444..737)
                     /locus_tag="OPU52_RS29765"
                     /old_locus_tag="OPU52_29760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609279.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antitoxin"
                     /protein_id="WP_023317864.1"
                     /translation="MINLYDPVHPGEFIREMFMEPFEIPAAELADKLDVSQSTLSRLLN
                     GKTDLSYEMALRLSKVVGRSAESWVNMQTQFSLSKSRKSLAAELEHLHPMFP"
                     /name="HigA family addiction module antitoxin"
     gene            1074..1355
                     /locus_tag="OPU52_RS29770"
                     /old_locus_tag="OPU52_29765"
     CDS             1074..1355
                     /locus_tag="OPU52_RS29770"
                     /old_locus_tag="OPU52_29765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000594459.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_032440460.1"
                     /translation="MIKNIKHKGLRSFAEEGSTAGIQPSMAKRLRMILTTLSTATCIQD
                     VVDVRALGCHPLKGERKGEYSVEVNGNWRVVFKVEEPNVLDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(1813..1959)
                     /locus_tag="OPU52_RS29775"
                     /old_locus_tag="OPU52_29770"
     CDS             complement(1813..1959)
                     /locus_tag="OPU52_RS29775"
                     /old_locus_tag="OPU52_29770"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_269136674.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPVRHAQAPLAAATGKKVYKRLLI
                     QSS"
                     /name="replication initiation protein"
     gene            2374..2565
                     /locus_tag="OPU52_RS29780"
                     /old_locus_tag="OPU52_29775"
     CDS             2374..2565
                     /locus_tag="OPU52_RS29780"
                     /old_locus_tag="OPU52_29775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_040242829.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDDN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2565..2966
                     /locus_tag="OPU52_RS29785"
                     /old_locus_tag="OPU52_29780"
     CDS             2565..2966
                     /locus_tag="OPU52_RS29785"
                     /old_locus_tag="OPU52_29780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_040242827.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGARNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(1851..2253)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.79"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cggtgcgtac aattatgact ttatgttaaa tcattaggga ggggattctg ctggaactta
       61 gtggatgtta ttgcatatca gacaaatttc ggcagatttc ccaagttatc gagtttagtt
      121 ttgtttggat ctgtggttat gtagccatcg ttcatcgctt ccactttggc tcctaggttc
      181 cacttaccag tagagctgtt ctttacaact gtcataaagc tggcttttcc catgctgatc
      241 agctcgctga tgaatttgcg agagctgatt gagccggcag tgttccatga gccatctcgg
      301 tttattttat gaacttttac gaattcgatg tgctgaccag cactgtccat tttgattgct
      361 gagatataga aatctaccat ggttgcctcc tgatggctgc tgggtgtttt acgtaacaaa
      421 agcccgcgtt ctgcgggctt ttttcatgga aacattggat gcaagtgttc cagctctgcc
      481 gctaaagatt tgcgactttt tgacaggctg aattgggtct gcatgtttac ccacgactct
      541 gcagagcggc ctacgacctt cgacaatcta agtgccattt catagcttaa gtctgttttc
      601 ccatttaaca gtctacttaa ggtagactgg gatacatcaa gtttatcggc taactctgcg
      661 gcaggtattt cgaacggttc catgaacatt tctctgataa actcaccagg atgaacagga
      721 tcgtaaagat ttatcatgcc ttcctctgtt tgttttgtat ttgattatac aaaaaaatta
      781 ctgcctttca gtatgcgcat tgcacaatgt gcaagttcat gatattgaca aaaaaagcag
      841 tcagctttag gatactcgtt ggagtcaaag ctactgcgta tgtatgggct tttatggcct
      901 tttcaaggcg cagtatttta cccttaggat tcgttgaagt caaatgaggt gattgacctc
      961 aagaacaaac ttacgtcaat tgttttaata aagcaagggg gcaaaatgga actaattaaa
     1021 atgattttaa aatatagata caggtataga cgaaaaaaat atggggattg tagatgataa
     1081 aaaacataaa acataaagga cttaggagct ttgctgaaga aggtagcacc gccggtattc
     1141 agcccagtat ggcgaaaaga cttcgcatga ttttgactac gctaagcaca gcaacttgca
     1201 ttcaagacgt tgttgacgtt agggcgttag ggtgccaccc cctaaagggg gagcgtaaag
     1261 gcgagtattc cgttgaagtt aatgggaact ggcgggtagt tttcaaggtt gaggaaccaa
     1321 acgtcttaga cgttgatctt gaagattatc attagttatc aataagtaag ttgctaatcc
     1381 atccaagtga aagtacggat ggattaggga ctttattaaa aaagtaacct ctggagaaag
     1441 tatgagatcc tttatggttt tattgttccc gttgattagc gtaactattg ctggagtcct
     1501 agcttttcgt ggtattgatg gctggggatg gttcttgtta gctgctgtac tttgtgcagg
     1561 ggctgatact gtccagaagc atgtgtctac caataaaaag gagcctgctg gtgagtgagc
     1621 tgtcttggtt cttccttgac tgctttgaat gataaagcgt atcttactcg ccgagacgaa
     1681 aaaaccgcct ggggaggcgg ttttttcgag ggttcagtaa gttggggaac ttctgaaccg
     1741 tggtaacagg gtgtacaaga ccgctgaaac caaattctgt cctttcagtt tagccgtagt
     1801 tgggctgaga cttcaagaac tctgtatcag taatctcttg tacaccttct taccagtggc
     1861 tgctgccagt ggcgcttgtg cgtgtcttac cgggttggac tcaagacgat agttaccgga
     1921 taaggcgcag cagtcggact gaacgggggg ttcgtgcata cagtccagct tggagcgaac
     1981 tgccttcccg gaactgagtg tcaggcgtgg aatgagataa acgcggccat aacagcggaa
     2041 tgacaccggt aaaccgaatg gcaggaacag gagagcgcac gagggagcca tcagggggaa
     2101 acgcctgata tctttatagt cctgtcgggt ttcgccacca ctgatttgag cgtcagcttt
     2161 gtgatgcttg tcaggggggc ggagcctatg gaaaaacggc cgcttagcgg cctttccttt
     2221 tccccgtcac gcgaccgctc ggttttctcg agcttttata cgcatgctcc tgccgctcgc
     2281 cgcagccgaa cggcaggagc atagcgactg agtgagcgag gaagcggaaa agagaacatc
     2341 cctacactga gcactgacgc tctgaggcct cttatgacga aacaacagaa aacagcgctg
     2401 aacatggcta aattcatcca gaatcagtct ctgctcctgc tggagaagct taacgagctt
     2461 gatcttgatg tcgaggccga cctttgtgag aaactccacg atgatgcgga gcatcttttc
     2521 cgtacactgt cctcgagact ggatgcatta caggatgata actgatggcc agagtgtcta
     2581 ttagtgaggc tgcccgactg acgggtaaga gtagaacaac actgcacagg ttaattaaag
     2641 caggtgacct gtccacctgt agcggtgcac gtaatgcaaa aatggtagat acttcagagc
     2701 ttttacgtgt ctttggtccc tttgagcaac cgaagggtga acaccattct ggacaggtct
     2761 ctgaacagcg tgatacagcc tctgctgacc agagtgaaca ggtgattcgt catctgaaac
     2821 aggagattga acacctgaac accttacttt tgtccaagga ttcgcacatt gacagcctga
     2881 aacaggccat gctccttctt gaaaatcacc aggcaaaatt aactgaatcc ccggcgccat
     2941 ggtggaaatt ctggaaaaaa tcctgaccgc gtcatgcttc agttttcctc tccggtcatt
     3001 ccggggagtt cctgaacctt cccaaaaatc gccagatctc tgagcactcc tcaccacgaa
     3061 aaatacccac accccacgca aaattaaaat tttgcagata gacctttagt ttcaattagt
     3121 tatctattgt aaattacgca attttatttt ttgtaaggtg aatccgagtc gtgggcgact
     3181 ctatggcgaa tcgctgacga attgcccacg attcatatgt gaatcacgct ttattatcat
     3241 atggttatga tgaattgact cttgattcaa ttcatcactt tgggtgtttt ttgttcatgg
     3301 tgactcttga ttcaattcac gagtcgaatc gccggtgaat cgtgtggtga gtcgtccggc
     3361 gacttgccat aacgtgattg ccggccgtcg acgaacccga ttcctgaacg tgctgaaaac
     3421 gggttttccg gctgcgccgg caacggctca cgaccacgca ataaattgcg tccccgttca
     3481 ccgttttcgg atggaaagaa cgccggaaac aggacttacc ctggctgaat ggcgtgaatt
     3541 ttcgagctat gcacttgcgt gcatactcat gcatgccgta aaaacagagc ctgcgcgttt
     3601 ctggcgggtt ttcgggtggt ttgttgcctg ttttaccggt ttcccgtcag aaacgccatg
     3661 aggccgtttt ag
//
